A systems-based framework to computationally describe putative transcription factors and signaling pathways regulating glycan biosynthesis

• Theodore Groth,
• Rudiyanto Gunawan and
• Sriram Neelamegham

Beilstein J. Org. Chem. 2021, 17, 1712–1724, doi:10.3762/bjoc.17.119

• acetylation, methylation, and phosphorylation, which alter TF access; and iii) methylation of CpG islands in promoter regions that inhibit gene expression [4][5]. There are currently several isolated studies of TF–glycogene interactions, but a systematic “systems-level analysis” is absent. Many of these

• selecting 1 million TF–gene pairs. Linear regression and statistical analysis are then performed on the top 5% hits (positive and negative coefficients) to establish TF–gene correlations. This analysis accounts for target gene copy number, tumor purity, and promoter methylation extent; and iii) TF–gene

• glycosylation flux in cancer. Some TFs were found to interact with methyl CpG-binding TFs when regulating glycosaminoglycan proteins, implicating methylation as a possible modulator of glycosylation in cancer. Our TF–glycogene relationships, mined from Cistrome Cancer DB, represent a starting point for

A comprehensive review of flow chemistry techniques tailored to the flavours and fragrances industries

• Guido Gambacorta,
• James S. Sharley and
• Ian R. Baxendale

Beilstein J. Org. Chem. 2021, 17, 1181–1312, doi:10.3762/bjoc.17.90

N-tert-Butanesulfinyl imines in the asymmetric synthesis of nitrogen-containing heterocycles

• Joseane A. Mendes,
• Paulo R. R. Costa,
• Miguel Yus,
• Francisco Foubelo and
• Camilla D. Buarque

Beilstein J. Org. Chem. 2021, 17, 1096–1140, doi:10.3762/bjoc.17.86

• N-methylation led to (−)-angustureine (107) in high overall yield (Scheme 31). The same methodology was applied to the synthesis of (−)-cuspareine (108), starting in this case from enantiomeric imine (RS)-104b, and using 2-(3,4-dimethoxyphenyl)ethylmagnesium bromide as Grignard reagent. A

• , which after desulfination and N-methylation led to expected (+)-sedamine (125) in 30% overall yield from ketone derivative 124. The stereoselective synthesis of trans-5-hydroxy-6-substituted-2-piperidinones was also reported by the group of Wei, taking advantage of the addition of Grignard reagents to N

• -sulfinyl imine 160. A subsequent base promoted cyclization of chloroamides (158 and 162) and the products 165 and 163 were obtained in 91% and 93% yields respectively. The N-methylation of alkaloids 163 and 165 using 37% formaldehyde and sodium borohydride formed the tetrahydroisoquinoline 164 and 166 in

Synthesis of 10-O-aryl-substituted berberine derivatives by Chan–Evans–Lam coupling and investigation of their DNA-binding properties

• Peter Jonas Wickhorst,
• Mathilda Blachnik,
• Denisa Lagumdzija and
• Heiko Ihmels

Beilstein J. Org. Chem. 2021, 17, 991–1000, doi:10.3762/bjoc.17.81

• berberrubine and berberine derivatives were synthesized by the Cu2+-catalyzed Chan–Evans–Lam coupling of berberrubine with arylboronic acids and subsequent 9-O-methylation. The reaction is likely introduced by the Cu2+-induced demethylation of berberrubine and subsequent arylation of the resulting 10-oxyanion

• conditions to give the corresponding 9-methoxy-substituted derivatives 5a–e in moderate to good yields of 40–77% (Scheme 1). During the methylation of derivative 5f a transesterification occurred and a 2:1 mixture of the ethyl and methyl ester was formed that could not be further separated. The novel

• methylation. The straightforward synthetic route enables the synthesis of a new class of berberine derivatives from easily accessible starting materials. The derivatives bind with slightly higher affinity to G4-DNA as compared to the parent berberine (1a) and induce a moderate stabilization of telomeric

Beyond ribose and phosphate: Selected nucleic acid modifications for structure–function investigations and therapeutic applications

• Christopher Liczner,
• Kieran Duke,
• Gabrielle Juneau,
• Martin Egli and
• Christopher J. Wilds

Beilstein J. Org. Chem. 2021, 17, 908–931, doi:10.3762/bjoc.17.76

• backbone modification occurs in ribosomal RNA (rRNA) of both pro- and eukaryotes [6]. A very common natural modification that concerns the ribose moiety is 2'-O-methylation (2'-OMe). 2'-OMe nucleotides are scattered throughout all types of RNA, including mRNA, tRNA, rRNA, snRNA, snoRNA, miRNA and viral RNA

• ) (TIPDS) protected uridine, protection of N3 was needed in order to prevent methylation at this position (Scheme 4). The N3-benzoylated derivative could then be treated with methyl iodide in the presence of silver oxide in order to methylate the 2'-OH. A similar strategy was employed to synthesize 3',5'-O

• -TIPDS-N4-benzoyl-2'-O-methylcytidine. Next, 3',5'-O-TIPDS-N6-benzoyladenosine suffered from methylation at the nucleobase and thus, 6-chloro-9-β-ᴅ-ribofuranosylpurine was instead used as the starting material. Once TIPDS protected, the 2'-OH could, once again, be selectively methylated with methyl

Breakdown of 3-(allylsulfonio)propanoates in bacteria from the Roseobacter group yields garlic oil constituents

• Anuj Kumar Chhalodia and
• Jeroen S. Dickschat

Beilstein J. Org. Chem. 2021, 17, 569–580, doi:10.3762/bjoc.17.51

• -(allyldisulfanyl)propanoate (26) were observed. While the presence of 24 can be explained by the O-methylation of the DmdA product 37 with S-adenosylmethionine (SAM, Scheme 4E), compounds 25 and 26 require a second deallylation of 37 to 3-mercaptopropanoic acid (38) possibly by DmdA, the reaction with a

• corresponding thiol MeSH or 13, and O-methylation (Scheme 4F). Very similar patterns of volatiles were obtained in the feeding experiments of DAllSP with D. shibae and O. indolifex (Figure 2B,C, Table 1 and Figures S2 and S3 in Supporting Information File 1). An additionally observed compound in one analysis of

• ). While compound 23 can arise from AllMSP by deallylation to 3-(methylsulfanyl)propanoic acid (36), potentially through DmdA, and O-methylation, the derivative 24 may be formed analogously through intermediate 37 (Scheme 4A and E). The higher production of 23 in comparison to 24 suggests that the

Benzothiazolium salts as reagents for the deoxygenative perfluoroalkylthiolation of alcohols

• Armin Ariamajd,
• Nils J. Gerwien,
• Benjamin Schwabe,
• Stefan Dix and
• Matthew N. Hopkinson

Beilstein J. Org. Chem. 2021, 17, 83–88, doi:10.3762/bjoc.17.8

• observed within 16 h at rt, and the heteroaromatic compounds 1a–e could be isolated in good yields. Subsequent N-methylation with methyl trifluoromethanesulfonate in CH2Cl2 also proceeded smoothly with the BT-SRF reagents each being obtained after 48 h at rt in high yields upon precipitation with Et2O. As

Progress in the total synthesis of inthomycins

• Bidyut Kumar Senapati

Beilstein J. Org. Chem. 2021, 17, 58–82, doi:10.3762/bjoc.17.7

• inthomycins [36]. These triene moieties are a sub-unit of the oxazolomycin class of antibiotics. To prepare the phenyl analogue of racemic inthomycin C (rac-3), at first, the phosphonate 28 was prepared using a Claisen condensation of ethyl propionate (25) followed by methylation of 26a, treatment with

• benzoate to give (−)-141 in good yield. Next, the benzoate-protected ynoate (−)-141 was converted into aldehyde (Z)-(+)-143a by employing a copper-catalyzed methylation of the alkyne moiety to the corresponding enoate (Z)-(+)-142 followed by an ester reduction–oxidation sequence using DIBAL-H and TPAP

All-carbon [3 + 2] cycloaddition in natural product synthesis

• Zhuo Wang and
• Junyang Liu

Beilstein J. Org. Chem. 2020, 16, 3015–3031, doi:10.3762/bjoc.16.251

• -catalyzed intermolecular carboxylatve TMM [3 + 2] cycloaddition [36] of enone 65 and TMM donor 62 to forge the highly-substituted spirocyclic cyclopentane 66a [38] (Scheme 4A). Methylation of the resultant cyclopentane 66a gave methyl ester 66b in 93% yield over two steps. A six-step synthesis from ester

Anion exchange resins in phosphate form as versatile carriers for the reactions catalyzed by nucleoside phosphorylases

• Julia N. Artsemyeva,
• Ekaterina A. Remeeva,
• Tatiana N. Buravskaya,
• Irina D. Konstantinova,
• Roman S. Esipov,
• Anatoly I. Miroshnikov,
• Natalia M. Litvinko and
• Igor A. Mikhailopulo

Beilstein J. Org. Chem. 2020, 16, 2607–2622, doi:10.3762/bjoc.16.212

• phosphate [28][29]) and moderate or low yields, on the one hand, and the need to obtain N7Me-Gua [30][32][33][34][35] and N7Me-dGua [31][34][36][37][38] by chemical methylation, the failure of Ara-1P synthesis [34], and the need to utilize N7-methylguanine, on the other. In a recently published work by

NMR Spectroscopy of supramolecular chemistry on protein surfaces

• Peter Bayer,
• Anja Matena and
• Christine Beuck

Beilstein J. Org. Chem. 2020, 16, 2505–2522, doi:10.3762/bjoc.16.203

• shifts for both 1H and 13C nuclei. Methylation of Lys and Arg occurs as posttranslational modification (PTM) of proteins in nature, often used as a switch to regulate protein interactions and thus their function [112][113]. The Crowley lab has used this advantage to study the binding of sulfonatocalix[4

Synthetic approaches to bowl-shaped π-conjugated sumanene and its congeners

• Shakeel Alvi and
• Rashid Ali

Beilstein J. Org. Chem. 2020, 16, 2212–2259, doi:10.3762/bjoc.16.186

Access to highly substituted oxazoles by the reaction of α-azidochalcone with potassium thiocyanate

• Mysore Bhyrappa Harisha,
• Pandi Dhanalakshmi,
• Rajendran Suresh,
• Raju Ranjith Kumar and
• Shanmugam Muthusubramanian

Beilstein J. Org. Chem. 2020, 16, 2108–2118, doi:10.3762/bjoc.16.178

• also obtained from 3m. S-Methylation of 3m was achieved in 91% yield with methyl iodide in the presence of NaH/THF and the S-benzylation has been carried out by a similar procedure (Scheme 5). To derive the mechanism of the reaction, a few control experiments have been executed (Scheme 6). Initially

Convenient access to pyrrolidin-3-ylphosphonic acids and tetrahydro-2H-pyran-3-ylphosphonates with multiple contiguous stereocenters from nonracemic adducts of a Ni(II)-catalyzed Michael reaction

• Alexander N. Reznikov,
• Dmitry S. Nikerov,
• Anastasiya E. Sibiryakova,
• Victor B. Rybakov,
• Evgeniy V. Golovin and
• Yuri N. Klimochkin

Beilstein J. Org. Chem. 2020, 16, 2073–2079, doi:10.3762/bjoc.16.174

• ,6R)-13b. Intermolecular N-methylation of reduction product 7. Synthesis of pyrrolidinyl phosphonic acids 11a–d. Synthesis of tetrahydropyranylphosphonates 13a–f via diastereoselective Henry/acetalyzation reaction. Synthesis of (3,4-dihydro-2H-pyran-5-yl)phosphonate 14. Optimization of the conditions

Naphthalene diimide–amino acid conjugates as novel fluorimetric and CD probes for differentiation between ds-DNA and ds-RNA

• Annike Weißenstein,
• Myroslav O. Vysotsky,
• Ivo Piantanida and
• Frank Würthner

Beilstein J. Org. Chem. 2020, 16, 2032–2045, doi:10.3762/bjoc.16.170

• nucleophilic substitution and then methylated. NDI 4 could be isolated in a yield of 60% after purification by column chromatography. In the last synthetic step, the molecule was triply methylated with iodomethane in acetonitrile at room temperature for three days. After complete methylation, purification by

The biomimetic synthesis of balsaminone A and ellagic acid via oxidative dimerization

• Sharna-kay Daley and
• Nadale Downer-Riley

Beilstein J. Org. Chem. 2020, 16, 2026–2031, doi:10.3762/bjoc.16.169

• synthesized through the oxidation of lawsone (6), in the presence of sodium persulfate, followed by methylation [25]. The cyclization of binaphthyl 16 was then attempted taking into consideration the photolytic cyclization of binaphthyls to form pentacyclic furan derivatives [8][18][22]. However, the

• by Alam et al. [23], starting from methyl gallate (15), it was anticipated that a more concise and efficient synthesis could be attained. Methyl gallate (15), which may be obtained commercially or from the methylation of gallic acid (10) [23], was subjected to the oxidants CAN, PIDA, FeCl3·6H2O, and

Stereoselective Biginelli-like reaction catalyzed by a chiral phosphoric acid bearing two hydroxy groups

• Xiaoyun Hu,
• Jianxin Guo,
• Cui Wang,
• Rui Zhang and
• Victor Borovkov

Beilstein J. Org. Chem. 2020, 16, 1875–1880, doi:10.3762/bjoc.16.155

• followed by further modifications involving highly regioselective 1,4-cycloetherization [19], 2,3-spiroboration [20], 2,3-sulfitation [21], and 2,3-methylation [22] of 1. Therefore, the strategy for the catalyst’s preparation was based on the established regioselective 2,3-sulfitation reaction of 1 and

Clickable azide-functionalized bromoarylaldehydes – synthesis and photophysical characterization

• Dominik Göbel,
• Marius Friedrich,
• Enno Lork and
• Boris J. Nachtsheim

Beilstein J. Org. Chem. 2020, 16, 1683–1692, doi:10.3762/bjoc.16.139

• diphenylphosphoryl azide (DPPA) in excellent yield. Finally, the oxazoline group, which acted as directing and protecting group, was removed in a three-step sequence of N-methylation, reduction of the in situ formed iminium ion and acidic hydrolysis. This afforded the azide-functionalized para-bromobenzaldehyde 3 in

• -methylbenzaldehyde). Bromofluorenecarbaldehyde 5 The synthetic route to azide-functionalized 7-bromofluorene-2-carbaldehyde 5 started from unfunctionalized fluorene. Double bromination to 14, followed by double methylation of the methylene bridge to 15 and a lithiation/formylation sequence afforded 7-bromofluorene-2

• Scheme 3). Derivatization of fluorenyl methanol 19 To gain deeper insights into the emission behavior of fluorenes bearing different functional groups in the side chains, fluorenylmethanol 19 was subjected to derivatization reactions (see Scheme 4). Deprotonation and subsequent methylation afforded

4-Hydroxy-3-methyl-2(1H)-quinolone, originally discovered from a Brassicaceae plant, produced by a soil bacterium of the genus Burkholderia sp.: determination of a preferred tautomer and antioxidant activity

• Dandan Li,
• Naoya Oku,
• Yukiko Shinozaki,
• Yoichi Kurokawa and
• Yasuhiro Igarashi

Beilstein J. Org. Chem. 2020, 16, 1489–1494, doi:10.3762/bjoc.16.124

• methyltransferase [27]. Entry of malonate as the acylate precursor into this pathway is proposed to yield 3 (4 in the original literature) [29]. Thus, 1 is very likely to be biosynthesized by the same mechanism followed by additional methylation on C3. Compound 1 is reportedly inhibitory to Mycobacterium

One-pot synthesis of 1,3,5-triazine-2,4-dithione derivatives via three-component reactions

• Gui-Feng Kang and
• Gang Zhang

Beilstein J. Org. Chem. 2020, 16, 1447–1455, doi:10.3762/bjoc.16.120

• involved in the methylation reaction mechanism (Scheme 5d). Based on previous literature reports and our experimental observations, a plausible mechanism for the synthesis of 6 is proposed in Scheme 6. Initially, the reversible nucleophilic attack of thiourea 2 on aldehyde 1 forms imine 8. Then, a

Recent synthesis of thietanes

• Jiaxi Xu

Beilstein J. Org. Chem. 2020, 16, 1357–1410, doi:10.3762/bjoc.16.116

• converted to thiazolobenzimidazolium perchlorate 71 by methylation with dimethyl sulfate and addition of HClO4. After the treatment with KOH powder in MeCN and subsequent hydrolysis it gave thietanylbenzimidazolone 75. In the last step, the hydroxide ion first nucleophilically added to the iminium 71 to

Copper-catalysed alkylation of heterocyclic acceptors with organometallic reagents

• Yafei Guo and
• Syuzanna R. Harutyunyan

Beilstein J. Org. Chem. 2020, 16, 1006–1021, doi:10.3762/bjoc.16.90

• the work of Feringa and co-workers, the methylation reaction using Me2Zn resulted in a low yield of 44% due to the difficult purification of the crude product [15]. However, the same authors showed later that the copper-catalysed ACA of Me3Al to Boc-protected 4-piperidone can be used as a key step in

Efficient synthesis of 3,6,13,16-tetrasubstituted-tetrabenzo[a,d,j,m]coronenes by selective C–H/C–O arylations of anthraquinone derivatives

• Seiya Terai,
• Yuki Sato,
• Takuya Kochi and
• Fumitoshi Kakiuchi

Beilstein J. Org. Chem. 2020, 16, 544–550, doi:10.3762/bjoc.16.51

• examining various carbonyl methylenation methods, we found that the dimethylenation products 6 can be obtained in high yields through methylation of the carbonyl groups, followed by dehydration. Thus, the reaction of 4aa with methyllithium and subsequent treatment of the crude diol with NaH2PO2·H2O and NaI

Architecture and synthesis of P,N-heterocyclic phosphine ligands

• Wisdom A. Munzeiwa,
• Bernard Omondi and
• Vincent O. Nyamori

Beilstein J. Org. Chem. 2020, 16, 362–383, doi:10.3762/bjoc.16.35

• chlorodiphenylphosphine, afforded 1-methyl-4,5-bis(diphenylphosphino)imidazole (85). Finally, N-methylation gave the imidazolium salt derivative 86 in good yield (65%). Preparation of N-heterocyclic phosphines via metal-catalyzed P–C/N bond formation There is limited availability of certain N-containing precursors and

Two antibacterial and PPARα/γ-agonistic unsaturated keto fatty acids from a coral-associated actinomycete of the genus Micrococcus

• Amit Raj Sharma,
• Enjuro Harunari,
• Naoya Oku,
• Nobuyasu Matsuura,
• Agus Trianto and
• Yasuhiro Igarashi

Beilstein J. Org. Chem. 2020, 16, 297–304, doi:10.3762/bjoc.16.29

• ongoing screening program to discover new natural products from coral-associated bacteria, we have recently reported a catecholate siderophore, labrenzbactin, from an alphaproteobacterium Labrenzia [17] and an unsaturated fatty acid with unique methylation pattern from a gammaproteobacterium Microbulbifer